eegvis
- work in progress to visualize EEG files in python
- currently lots of experimentation - not ready for general consumption
- goal is to provide portion of software infrastructure for EEG analysis
Scope of Project
- functions to work with matplotlib to visualize EEG
- functions to interactively plot EEGs in the jupyter notebook
- web (bokeh) applications to browse and annotate EEGs
Status
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currently this is still experimental, but it has a useful eeg browser for the jupyter notebook
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basic filtering added, with notch and low-pass/high-pass filter
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version 0.2.1 works with bokeh 2.0.2 !
install
jupyter nbextension enable --py widgetsnbextension --sys-prefix
To do
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matplotlib EEG plotting (firstdraft)
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basic bokeh EEG plotting (firstdraft)
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basic montage EEG plotting, (firstdraft)
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simple browsing EEG with bokeh in jupyter (firstdraft)
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first filtering dropdowns added to nb browser tool
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allow kwargs to set plot width and height
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[/] notch and HF filters dropdowns - problem with ringing on current firwin filters
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need scale/calibration bars
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catch when current displayed data is not big enough to filter
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add common avg reference montage (CAR)
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remove cruft from plotting in various widgets
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bokeh application to browse + annotate EEG, - still experimenting
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montage parser/loader
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keyboard responses, howto?
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add ability to control scale of each electrode waveform individually
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rewrite and package
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publish
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possible re-write/extend Bokeh for canvas widget
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update to bokeh 1.0.x
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tests for mpl_helpers
Other notes
- Note, to respond to keyboard commands in bokeh, probably need an extension: see: https://groups.google.com/a/continuum.io/forum/#!searchin/bokeh/keypress/bokeh/XCLqg1nyIgE/CU7lJGcuBgAJ
Developer Install
currently this is developer only package
git clone https://github.com/eegml/eegvis.git
cd eegvis
pip install -e .
jupyter notebook use
conda install ipywidgets conda install widgetsnbextension
jupyter lab use
jupyter labextension install jupyterlab_bokeh jupyter labextension install @jupyter-widgets/jupyterlab-manager